# List of top-scoring protein chains for T0252.t2k-w0.5 hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1mkiA 330 2.27e-48 e.3.1.2 84994 1iysA 262 2.95e-01 e.3.1.1 -11760 1iyoA 262 3.01e-01 e.3.1.1 76970 1i2sA 282 3.03e-01 e.3.1.1 71104 4blmA 265 6.91e-01 1btl e.3.1.1 42721 1klxA 138 8.31e-01 a.118.18.1 77440 2fokA 579 8.79e-01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1bdfA 235 8.91e-01 1bdfA d.74.3.1 39727 d.181.1.1 42602 1g81A 164 9.09e-01 1fw9A d.190.1.1 60336 1g1bA 164 9.33e-01 1fw9A d.190.1.1 60202 1dlpA 236 9.90e-01 1b2pA b.78.1.1 28000 b.78.1.1 28001 1mblA 256 1.09e+00 1btl e.3.1.1 42723 1fw9A 164 1.38e+00 1fw9A d.190.1.1 60059 1omzA 293 2.07e+00 c.68.1.15 87093 1dy6A 267 2.59e+00 1btl e.3.1.1 42732 1hzoA 271 3.04e+00 e.3.1.1 71092 1ad1A 266 3.29e+00 1aj2 c.1.21.1 29668 1dceB 331 3.47e+00 1dceB a.102.4.3 18872 1eqnA 321 3.67e+00 1dd9A e.13.1.1 43256 1dd9A 338 3.75e+00 1dd9A e.13.1.1 43254 1kb9D 246 3.90e+00 a.3.1.3 77317 f.23.11.1 77318 1ezvD 245 3.90e+00 1be3D a.3.1.3 59546 f.23.11.1 59547 1kyoD 248 3.90e+00 a.3.1.3 73254 f.23.11.1 73255 1of5A 221 3.94e+00 d.17.4.2 86933 1n3xA 366 4.14e+00 c.94.1.1 -8643 1cqqA 180 4.21e+00 1cqqA b.47.1.4 26422 1alq 266 4.62e+00 1btl e.3.1.1 42707 1mdq 371 4.89e+00 4mbp c.94.1.1 35783 1fokA 576 5.00e+00 2fokA a.4.5.12 16137 a.4.5.12 16138 a.4.5.12 16139 c.52.1.12 33325 1s03G 129 5.10e+00 1nl5A 366 5.19e+00 c.94.1.1 -8644 1gghA 753 5.27e+00 1cf9A c.23.16.3 31465 e.5.1.1 42839 1ggeA 753 5.30e+00 1cf9A c.23.16.3 31449 e.5.1.1 42823 1gg9A 753 5.30e+00 1cf9A c.23.16.3 31445 e.5.1.1 42819 1qf7A 753 5.31e+00 1cf9A c.23.16.3 31461 e.5.1.1 42835 1cf9A 753 5.52e+00 1cf9A c.23.16.3 31441 e.5.1.1 42815 1anf 370 5.56e+00 4mbp c.94.1.1 35776 1ezoA 370 5.56e+00 4mbp c.94.1.1 59539 1fqbA 370 5.57e+00 4mbp c.94.1.1 59985 1nmuA 382 5.62e+00 c.94.1.1 80665 1k1zA 78 5.63e+00 b.34.2.1 68026 1mh3A 421 5.65e+00 a.4.1.1 79112 c.94.1.1 79113 1svxB 395 5.69e+00 1laxA 370 5.72e+00 c.94.1.1 84576 1c24A 263 5.81e+00 1c24A d.127.1.1 41148 2matA 264 5.83e+00 1c24A d.127.1.1 41146 3matA 265 5.85e+00 1c24A d.127.1.1 41149 4matA 278 5.85e+00 1c24A d.127.1.1 41150 1mg1A 450 5.94e+00 4mbp c.94.1.1 35790 h.3.2.1 45753 1r6zA 509 6.15e+00 unknown_sccs -3620 c.94.1.1 -8646 1a7lA 389 6.21e+00 4mbp c.94.1.1 35787 1qwsA 753 6.39e+00 c.23.16.3 -6555 e.5.1.1 -11848 1hsjA 487 6.40e+00 4mbp a.4.5.28 61237 c.94.1.1 61238 1kggA 258 6.43e+00 1btl e.3.1.1 42715 1pd21 199 6.77e+00 1pd21 2shpA 525 6.78e+00 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1p81A 753 6.97e+00 c.23.16.3 -6551 e.5.1.1 -11844 1p80A 753 7.32e+00 c.23.16.3 -6547 e.5.1.1 -11840 1mat 264 7.38e+00 1c24A d.127.1.1 41152 1bsg 266 7.57e+00 1btl e.3.1.1 42729 1ghpA 258 7.58e+00 1btl e.3.1.1 60520 1k82A 268 7.77e+00 a.156.1.2 75866 b.113.1.1 75867 g.39.1.8 75868 1p7zA 753 7.86e+00 c.23.16.3 -6543 e.5.1.1 -11836 1pjjA 271 7.94e+00 1aym1 285 7.96e+00 1aym1 1d3e1 285 7.97e+00 1ggkA 753 8.14e+00 1cf9A c.23.16.3 31453 e.5.1.1 42827 1omeA 258 8.50e+00 1btl e.3.1.1 42717 1p7yA 753 8.62e+00 c.23.16.3 -6539 e.5.1.1 -11832 1mpb 370 8.70e+00 4mbp c.94.1.1 35780 3blm 257 8.70e+00 1btl e.3.1.1 42709 1e5mA 416 8.79e+00 1dd8A c.95.1.1 58973 c.95.1.1 58974 1pioA 257 8.87e+00 1btl e.3.1.1 42719 1kobA 387 9.79e+00 1tkiA d.144.1.7 41640 1v27A 141 9.94e+00 b.7.1.2 -2969 1blp 257 1.04e+01 1btl e.3.1.1 42716 1l5jA 865 1.11e+01 a.118.15.1 73592 c.8.2.1 73593 c.83.1.1 73594 1flcA 432 1.12e+01 1flcA b.19.1.3 23837 c.23.10.2 31337 1jd3A 164 1.14e+01 1fw9A d.190.1.1 62896 1kfaL 217 1.15e+01 b.1.1.1 77365 b.1.1.2 77366 1gkcA 163 1.16e+01 d.92.1.11 70215 1bcpD 110 1.19e+01 1bcpD b.40.2.1 25132 1jqlB 140 1.20e+01 c.37.1.20 63234 1nexA 169 1.21e+01 a.157.1.1 80441 d.42.1.1 80442 1mizB 201 1.21e+01 a.11.2.1 79172 b.55.1.5 79173 1mk7B 192 1.23e+01 a.11.2.1 79219 b.55.1.5 79220 1mixA 206 1.23e+01 a.11.2.1 79166 b.55.1.5 79167 1gkdA 163 1.24e+01 d.92.1.11 70217 1kge 258 1.25e+01 1btl e.3.1.1 42708 1kgf 258 1.26e+01 1btl e.3.1.1 42712 1upaA 573 1.26e+01 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1ggjA 753 1.27e+01 1cf9A c.23.16.3 31457 e.5.1.1 42831 1jvyA 372 1.34e+01 c.94.1.1 63308 1nrlA 316 1.35e+01 a.123.1.1 -1668 1cknB 329 1.36e+01 1ckmA b.40.4.6 25361 d.142.2.3 41588 1ckmA 330 1.37e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 2mysC 149 1.47e+01 1wdcC a.39.1.5 17323 1jljA 189 1.49e+01 c.57.1.1 63169 1mvwC 147 1.49e+01 i.15.1.1 79525 1ihcA 188 1.49e+01 1di6A c.57.1.1 62379 1p2cA 212 1.52e+01 b.1.1.1 -2130 b.1.1.2 -2380 1si8A 484 1.52e+01 e.5.1.1 -11828 1mh5A 219 1.56e+01 b.1.1.1 -2076 b.1.1.2 -2353 1mj8L 219 1.57e+01 b.1.1.1 -2080 b.1.1.2 -2357 1mjuL 219 1.57e+01 b.1.1.1 -2083 b.1.1.2 -2360 1ipeA 259 1.60e+01 c.2.1.2 83700 1im5A 180 1.66e+01 unknown_sccs 66211 2ae2A 260 1.66e+01 1bdb c.2.1.2 29945 1c1eL 216 1.66e+01 8fabA b.1.1.1 20238 b.1.1.2 21250 1lu1 253 1.70e+01 1led b.29.1.1 24116 1mieL 219 1.72e+01 b.1.1.1 -2078 b.1.1.2 -2355 1g5zA 164 1.75e+01 1ggqA a.24.12.1 60298 1kktA 511 1.77e+01 a.102.2.1 68687 1mdaL 120 1.87e+01 2bbkL g.21.1.1 44885 1qwlA 505 1.88e+01 e.5.1.1 -11823 1fehA 574 1.88e+01 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1bm3L 214 1.89e+01 8fabA b.1.1.1 20066 b.1.1.2 21098 1sl4A 155 1.90e+01 1ae6L 219 1.91e+01 8fabA b.1.1.1 20210 b.1.1.2 21222 1k9iA 156 1.91e+01 d.169.1.1 68343 2bnh 457 1.92e+01 1a4yA c.10.1.1 30850 1s1hH 129 1.94e+01 1fuoA 467 1.96e+01 1furA a.127.1.1 19411 2fusA 467 1.96e+01 1furA a.127.1.1 19409 1furA 467 1.96e+01 1furA a.127.1.1 19403 1fuqA 472 1.97e+01 1furA a.127.1.1 19405 1dqqA 214 2.07e+01 8fabA b.1.1.1 20420 b.1.1.2 21390 3hfmL 214 2.07e+01 8fabA b.1.1.1 19976 b.1.1.2 21032 1uizA 115 2.10e+01 1kq7A 467 2.28e+01 a.127.1.1 72866 1rpxA 230 2.31e+01 1rpxA c.1.2.2 28536 7prn 289 2.52e+01 3prn f.4.3.1 43768 1nw2A 105 2.59e+01 c.47.1.1 -7380 1rihL 214 2.61e+01 b.1.1.1 -2129 b.1.1.2 -2368 1gcqC 70 2.63e+01 1gcpA b.34.2.1 60436 1pz5A 215 2.66e+01 b.1.1.1 -2086 b.1.1.2 -2363 1jr3D 343 2.67e+01 a.80.1.1 63251 c.37.1.20 63252 8prn 289 2.69e+01 3prn f.4.3.1 43767 1rqmA 105 2.70e+01 1qdmA 478 2.70e+01 1smrA a.64.1.2 18141 b.50.1.2 26838 1e7uA 961 2.71e+01 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1e7vA 960 2.71e+01 1e8xA a.118.1.6 19149 b.7.1.1 23184 d.15.1.5 37632 d.144.1.4 41712 1ibfA 151 2.72e+01 1yaiA b.1.8.1 62158 1dgfA 497 2.76e+01 1cf9A e.5.1.1 42782 1dghA 498 2.76e+01 1cf9A e.5.1.1 42790 1iud 380 2.81e+01 4mbp c.94.1.1 35786 1jtgA 263 2.82e+01 e.3.1.1 67266 1ck3A 263 2.84e+01 1btl e.3.1.1 42698 2tbs 222 2.85e+01 5ptp b.47.1.2 26009 1mlbA 214 2.87e+01 8fabA b.1.1.1 20050 b.1.1.2 21092 1dghB 497 2.89e+01 1cf9A e.5.1.1 42791 1kyfA 247 3.01e+01 b.1.10.1 73220 d.105.1.1 73221 1ce7A 241 3.03e+01 1mrj d.165.1.1 42194 1lhyA 263 3.13e+01 e.3.1.1 77967 1pskL 213 3.13e+01 8fabA b.1.1.1 20138 b.1.1.2 21168 1colA 204 3.17e+01 1a87 f.1.1.1 43378 1f4jA 527 3.19e+01 1cf9A e.5.1.1 42798 1jwvA 263 3.25e+01 e.3.1.1 71918 1esuA 263 3.29e+01 1btl e.3.1.1 42696 1htzA 263 3.31e+01 1btl e.3.1.1 61262 1jsxA 207 3.39e+01 c.66.1.20 71846 1m40A 263 3.39e+01 e.3.1.1 74437 1jwzA 263 3.40e+01 e.3.1.1 71922 1jtdA 263 3.41e+01 e.3.1.1 67264 1l0yB 221 3.42e+01 b.40.2.2 73442 d.15.6.1 73443 1b9kA 238 3.42e+01 1qtsA b.1.10.1 22315 d.105.1.1 40791 2stbE 222 3.42e+01 5ptp b.47.1.2 26006 1jvjA 263 3.43e+01 e.3.1.1 71896 1qs0A 407 3.44e+01 1qs0A c.36.1.11 31829 1ermA 263 3.44e+01 1btl e.3.1.1 42690 1fh5L 213 3.48e+01 32c2A b.1.1.1 20464 b.1.1.2 21428 1v2rT 223 3.48e+01 1hj8A 222 3.50e+01 b.47.1.2 65844 1utmA 242 3.51e+01 b.47.1.2 -4184 1n9bA 265 3.57e+01 e.3.1.1 85463 1fqgA 263 3.57e+01 1btl e.3.1.1 42699 1fdjA 363 3.58e+01 1fbaA c.1.10.1 59772 1ei5A 520 3.58e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1ct8A 214 3.61e+01 8fabA b.1.1.1 20408 b.1.1.2 21380 1onkA 254 3.65e+01 d.165.1.1 -11542 1ksr 100 3.71e+01 1qfhA b.1.18.10 21897 1ongA 265 3.71e+01 e.3.1.1 -11761 1tfmA 240 3.74e+01 1l9gA 192 3.84e+01 c.18.1.2 84568 1jhlL 108 3.88e+01 8fabA b.1.1.1 19966 1bit 237 3.88e+01 5ptp b.47.1.2 26008 1vk2A 204 3.94e+01 c.18.1.2 -6326 1jf0A 195 3.94e+01 1ej3A a.39.1.5 62926 1ibdA 151 3.98e+01 1yaiA b.1.8.1 62157 2mllA 241 3.99e+01 1mrj d.165.1.1 42195 1pzpA 263 4.00e+01 e.3.1.1 -11759